genome.fa.s8062.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008062.1 Hibiscus syriacus cultivar Beakdansim tig00110557_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2089609

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 995 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487565--1487616	24	2.2	24	96	0	95	57	23	9	9	1.60
1487568--1487623	14	4.3	14	78	17	75	53	26	12	7	1.64
1493620--1493714	29	3.1	29	74	19	79	41	0	3	55	1.15
1496280--1496315	18	2.0	18	88	0	54	27	13	19	38	1.90
1506266--1506384	53	2.2	53	93	0	202	20	5	14	59	1.55
1515396--1515521	67	1.9	67	85	3	173	38	19	16	25	1.92
1515457--1515576	58	2.1	58	83	0	150	39	15	16	29	1.89
1518300--1518357	30	1.9	30	96	0	107	5	15	43	36	1.69
1527918--1527996	16	5.4	15	70	25	62	67	2	2	27	1.17
1527901--1528001	41	2.5	40	87	6	152	68	1	1	27	1.11
1530894--1530941	19	2.5	20	82	3	62	29	12	6	52	1.63
1531801--1531871	34	2.1	33	86	2	97	21	26	15	36	1.93
1532199--1532239	20	2.0	20	90	0	64	14	26	41	17	1.88
1533317--1533358	14	3.0	14	79	10	50	23	0	2	73	0.94
1533940--1533999	31	1.9	32	86	6	88	45	1	1	51	1.21
1534314--1534351	19	2.0	19	89	0	58	55	7	0	36	1.29
1535906--1535999	42	2.3	42	90	1	145	15	15	21	46	1.83
1536390--1536434	23	2.0	23	86	0	63	53	2	2	42	1.25
1536753--1536787	14	2.5	14	90	0	52	54	5	0	40	1.24
1536801--1536878	15	5.3	15	67	11	54	41	10	0	48	1.37
1536801--1536884	29	2.8	30	85	5	109	39	9	0	51	1.35
1541780--1541813	17	2.0	17	88	0	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560177--1560203	3	9.0	3	100	0	54	33	0	0	66	0.92
1561000--1561055	25	2.2	26	84	9	71	37	10	1	50	1.48
1561274--1561637	179	2.0	179	89	4	556	41	3	8	46	1.51
1561830--1561863	18	1.9	18	88	5	52	26	2	8	61	1.40
1572542--1572584	21	2.0	21	100	0	86	25	23	27	23	2.00
1582707--1582741	2	18.0	2	94	5	63	48	0	0	51	1.00
1582725--1582966	38	6.3	38	68	19	94	42	4	7	45	1.53
1582818--1582843	13	2.0	13	100	0	52	38	7	7	46	1.61
1582795--1583081	38	8.0	36	76	15	206	42	5	7	44	1.55
1582788--1583077	68	4.1	72	76	10	224	42	5	7	44	1.55
1583118--1583179	23	2.7	22	75	20	56	12	4	3	79	1.02
1584816--1584854	13	3.0	13	100	0	78	30	15	15	38	1.88
1587414--1587469	29	1.9	29	88	0	85	14	33	30	21	1.93
1590549--1590579	15	2.1	15	100	0	62	51	19	0	29	1.47
1596329--1596386	25	2.3	25	82	5	73	55	0	5	39	1.22
1601190--1601220	14	2.2	14	94	0	53	0	22	3	74	0.96
1601229--1601256	2	14.0	2	100	0	56	50	0	0	50	1.00
1603893--1603931	15	2.6	15	100	0	78	48	15	5	30	1.66
1604854--1604887	15	2.2	16	89	5	52	29	11	29	29	1.92
1606946--1607410	22	21.5	22	79	7	488	45	8	0	46	1.34
1606962--1607415	66	7.0	65	85	7	577	44	8	0	46	1.34
1612176--1612207	2	16.0	2	100	0	64	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620153--1620221	31	2.2	31	89	0	111	43	4	4	47	1.42
1630725--1630756	2	16.0	2	100	0	64	50	0	0	50	1.00
1631044--1631079	17	2.1	17	100	0	72	16	11	11	61	1.57
1634143--1634173	16	1.9	16	100	0	62	58	19	12	9	1.62
1634244--1634274	10	3.1	10	90	0	53	61	16	9	12	1.56
1635370--1635424	14	4.2	14	73	17	55	56	23	10	9	1.62
1635363--1635428	24	2.8	24	92	0	114	57	21	10	10	1.62
1639157--1639194	9	4.2	9	80	12	51	36	2	0	60	1.11
1639164--1639200	18	2.1	18	100	0	74	40	5	0	54	1.24
1640666--1640711	20	2.3	20	88	7	67	41	13	19	26	1.88
1641081--1641207	20	6.2	20	93	1	200	19	16	15	48	1.82
1641081--1641207	41	3.1	40	89	4	200	19	16	15	48	1.82
1641101--1641278	20	8.8	20	84	6	121	20	16	17	44	1.87
1641210--1641288	40	2.0	40	92	0	131	20	15	21	43	1.88
1641203--1641290	20	4.4	21	78	8	94	19	14	23	42	1.88
1641558--1641583	13	2.0	13	100	0	52	15	15	30	38	1.88
1647572--1647596	2	12.5	2	100	0	50	52	0	48	0	1.00
1651912--1651997	43	2.0	43	100	0	172	37	18	13	30	1.90
1655892--1656210	159	2.0	159	98	0	620	32	24	12	31	1.92
1656519--1656569	23	2.2	23	82	0	57	45	1	1	50	1.24
1656557--1656635	19	4.3	19	73	9	67	48	1	1	49	1.17
1656599--1656688	25	3.5	26	73	15	80	45	2	1	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656599--1656653	27	1.9	27	85	10	74	45	3	1	49	1.30
1656734--1656779	21	2.1	23	88	8	69	50	0	4	45	1.21
1656679--1656765	26	3.5	25	74	13	72	48	0	3	48	1.18
1656751--1656813	23	2.6	24	78	19	60	47	0	1	50	1.10
1656742--1656811	23	3.0	22	75	19	54	50	0	1	48	1.09
1657010--1657101	40	2.3	41	84	5	125	46	17	16	19	1.84
1657099--1657163	29	2.2	29	86	0	85	33	13	18	33	1.90
1659411--1659451	18	2.3	18	87	8	57	14	4	12	68	1.36
1659829--1659863	17	2.1	17	88	0	52	25	5	11	57	1.56
1659861--1660029	84	2.0	84	88	0	248	24	14	11	48	1.78
1660528--1660619	42	2.2	42	88	0	139	33	23	20	21	1.97
1660528--1660718	103	1.9	101	91	2	310	36	22	19	21	1.95
1660549--1660680	61	2.1	63	90	2	205	37	21	18	22	1.94
1660611--1660775	40	4.2	40	83	10	225	36	24	18	20	1.95
1660567--1660718	61	2.5	60	79	6	137	38	22	17	21	1.93
1660709--1660773	34	1.9	34	93	0	112	38	27	15	18	1.91
1660746--1660800	21	2.6	21	91	5	85	32	29	20	18	1.96
1660812--1660860	21	2.3	21	96	0	89	18	20	30	30	1.96
1665518--1665554	13	2.8	14	84	12	51	35	2	0	62	1.10
1669118--1669169	2	26.0	2	100	0	104	50	0	0	50	1.00
1672621--1672703	22	3.8	22	98	0	148	32	20	24	22	1.98
1673472--1673550	21	3.8	21	73	5	79	41	0	1	56	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673461--1673547	42	2.2	40	84	12	115	43	0	1	55	1.07
1673471--1673564	42	2.2	43	85	10	131	43	0	1	55	1.06
1678630--1678669	21	1.9	21	85	10	55	15	12	37	35	1.85
1678698--1678739	21	2.0	21	90	0	66	26	26	21	26	1.99
1678963--1679022	29	2.0	31	90	6	97	41	16	6	35	1.75
1683660--1683752	39	2.4	39	90	0	141	22	10	9	56	1.62
1691668--1691769	50	2.0	50	100	0	204	38	14	19	27	1.91
1695925--1695969	19	2.3	20	88	7	67	66	4	0	28	1.11
1695936--1695977	19	2.2	19	83	8	50	66	7	0	26	1.17
1697342--1697382	21	2.0	21	90	9	66	58	4	0	36	1.20
1697406--1697445	18	2.3	18	86	4	55	70	5	5	20	1.26
1702874--1702911	19	2.0	19	85	10	51	63	2	5	28	1.30
1703184--1703244	28	2.2	28	93	0	104	29	26	11	32	1.91
1707888--1707985	49	2.0	49	97	0	187	26	33	22	17	1.96
1715954--1715988	6	5.8	6	93	0	61	34	0	17	48	1.47
1717526--1717558	16	2.1	16	100	0	66	36	6	24	33	1.80
1721675--1722061	183	2.1	184	90	2	620	45	8	2	42	1.48
1737108--1737166	19	3.1	18	74	13	57	54	0	1	44	1.10
1737123--1737192	32	2.3	32	83	11	87	51	0	0	48	1.00
1738609--1738651	22	1.9	23	85	4	61	13	44	9	32	1.76
1750867--1750908	16	2.7	16	82	14	52	57	2	0	40	1.12
1751202--1751276	38	2.0	37	82	10	91	48	4	0	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752645--1752692	24	2.0	25	83	4	62	12	22	16	47	1.80
1760681--1760705	13	1.9	13	100	0	50	24	0	12	64	1.27
1769970--1769996	12	2.2	12	100	0	54	22	14	33	29	1.94
1770948--1771050	36	2.9	36	98	0	197	41	17	17	23	1.90
1777114--1777176	15	4.2	15	93	0	108	30	33	22	14	1.93
1777114--1777176	30	2.1	30	100	0	126	30	33	22	14	1.93
1777261--1777334	29	2.6	29	97	2	141	18	21	16	43	1.88
1777350--1777395	12	3.8	12	91	0	56	41	26	4	28	1.74
1777363--1777404	12	3.4	12	93	3	66	45	23	2	28	1.66
1777709--1777881	64	2.7	63	84	3	204	26	20	21	32	1.97

Tables:   1   2   3   4   5   6   7   8   9